Registration and Call for Abstracts Open for Bioc2024

MBASED

Package containing functions for ASE analysis using Meta-analysis Based Allele-Specific Expression Detection


Bioconductor version: Release (3.18)

The package implements MBASED algorithm for detecting allele-specific gene expression from RNA count data, where allele counts at individual loci (SNVs) are integrated into a gene-specific measure of ASE, and utilizes simulations to appropriately assess the statistical significance of observed ASE.

Author: Oleg Mayba, Houston Gilbert

Maintainer: Oleg Mayba <mayba.oleg at gene.com>

Citation (from within R, enter citation("MBASED")):

Installation

To install this package, start R (version "4.3") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("MBASED")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("MBASED")
MBASED PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneExpression, Sequencing, Software, Transcription
Version 1.36.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License Artistic-2.0
Depends RUnit, BiocGenerics, BiocParallel, GenomicRanges, SummarizedExperiment
Imports
System Requirements
URL
See More
Suggests BiocStyle
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package MBASED_1.36.0.tar.gz
Windows Binary MBASED_1.36.0.zip
macOS Binary (x86_64) MBASED_1.36.0.tgz
macOS Binary (arm64) MBASED_1.36.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/MBASED
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MBASED
Bioc Package Browser https://code.bioconductor.org/browse/MBASED/
Package Short Url https://bioconductor.org/packages/MBASED/
Package Downloads Report Download Stats